Jonathan Hung - Academia.edu (original) (raw)

Papers by Jonathan Hung

Training machine learning (ML) models on large datasets requires considerable computing power. To... more Training machine learning (ML) models on large datasets requires considerable computing power. To speed up training, it is typical to distribute training across several machines, often with specialized hardware like GPUs or TPUs. Managing a distributed training job is complex and requires dealing with resource contention, distributed configurations, monitoring, and fault tolerance. In this paper, we describe TonY, an open-source orchestrator for distributed ML jobs built at LinkedIn to address these challenges.

Link prediction provides useful information for a variety of graph models, including communicatio... more Link prediction provides useful information for a variety of graph models, including communication, biochemical, and social networks. The goal of link prediction is usually to predict novel interactions (modeled as links/edges) between previously unconnected nodes in a graph. Link prediction is used on social networks to suggest future friends and in protein networks to suggest possible undiscovered pairwise interactions. Link prediction does not model repeat interactions or make any predictions about the number of interactions. To do this we need to predict the weight of links. We call this this problem link regression.

English is one of the most prevalent languages worldwide, third only to Mandarin Chinese and Span... more English is one of the most prevalent languages worldwide, third only to Mandarin Chinese and Spanish. With millions of people learning English as a second language, it is a worthwhile endeavor to improve their experience by creating learning tools customized to them. For our project, we created a classifier that can take raw English text and identify the writer as either an English-native speaker or an English learner. Furthermore, we expanded the classifier so that it could identify the writer’s native language given a raw text file. This classifier could become an important basis for a learning tool (i.e. an editing tool that corrects and gives suggestions specialized to the writer’s native language) that can help ESL students gain a better grasp of the English language.

Galectin-3 is a glycan-binding protein (GBP) that binds β-galactoside glycan structures to orches... more Galectin-3 is a glycan-binding protein (GBP) that binds β-galactoside glycan structures to orchestrate a variety of important biological events, including the activation of hepatic stellate cells to cause hepatic fibrosis. While the requisite glycan epitopes needed to bind galectin-3 have long been elucidated, the cellular glycoproteins that bear these glycan signatures remain unknown. Given the importance of the three-dimensional arrangement of glycans in dictating GBP interactions, strategies that allow the identification of GBP receptors in live cells, where the native glycan presentation and glycoprotein expression are preserved, possess significant advantages over static and artificial systems. Here, we describe the integration of a proximity labeling method and quantitative mass spectrometry to map the glycan and glycoprotein interactors for galectin-3 in live hepatic stellate cells. Understanding the identity of the glycoproteins and defining the structures of the glycans req...

Journal of Clinical Oncology, 2016

e16519Background: Castration resistant prostate cancer (CRPC) continues to present a challenge fo... more e16519Background: Castration resistant prostate cancer (CRPC) continues to present a challenge for oncologists. There is renewed interest in the use of docetaxel in advanced prostate cancer; howeve...

Paediatrics & Child Health, 2019

BackgroundPaediatric asthma exacerbations in Alberta are treated via standardized order sets know... more BackgroundPaediatric asthma exacerbations in Alberta are treated via standardized order sets known as the Alberta Acute Childhood Asthma Pathway (ACAP). This pathway is utilized in paediatric tertiary hospitals and in remote and rural locations. Incidence, magnitude, and risk factors for hypokalemia in inpatients receiving salbutamol for asthma exacerbations via this pathway are presently unknown.ObjectiveEstablish incidence, magnitude, and risk factors for hypokalemia associated with salbutamol therapy as directed by a paediatric asthma pathway.MethodsRetrospective cohort study using visit-level electronic medical data. Inpatients aged <18 years old receiving salbutamol via the ACAP with at least one potassium level were included. Hypokalemia was defined as mild (3.0 ≤ [K+] < 3.5 mEq/L), moderate (2.5 ≤ [K+] < 3.0 mEq/L), or severe ([K+] < 2.5 mEq/L), as measured in serum or blood gas. Binomial logistic regression was utilized to examine risk factors for hypokalemia, ro...

IEEE Sensors Journal, 2018

We propose a new readout paradigm for enhancing the performance of wireless resistive and reactiv... more We propose a new readout paradigm for enhancing the performance of wireless resistive and reactive sensors. Here, we consider a passive resistor-inductor-capacitor (RLC) sensor that is inductively coupled to an active reader, with the equivalent circuit of the whole telemetry system obeying the space-time reflection symmetry or the parity-time (PT) symmetry. As inspired by PT-symmetric quantum systems, this circuit has a non-Hermitian effective Hamiltonian that commutes with the antilinear, combined PT PT PT operator, where P P P and T T T are parity and time reversal operators. We demonstrate that the PTsymmetric wireless sensor system, when compared to conventional interrogation techniques using a passive coil antenna, may provide significantly improved quality factor (Q-factor), sensing resolution, and sensitivity in response to the sensor's reactance or resistance variation. Our results may have impact on various wireless sensing, detection, and imaging systems, particularly for emerging micromachined sensors, miniature implants, wearables, and internet-of-things (IoTs) applications.

IEEE Sensors Journal, 2017

We present here new types of self-powered, low-interference wireless sensors based on graphene ci... more We present here new types of self-powered, low-interference wireless sensors based on graphene circuits, which can have dual functions: chemical sensing at the molecular level and radio-frequency (RF) modulation. We demonstrate that a fully-passive, graphene-based harmonic (transponder) sensor can display a chemically-sensitive frequency multiplication effect, which, when linked to a hybrid-fed small antenna, can realize an ultrasensitive, low-profile, lightweight , and potentially flexible RF sensor. We have designed two different types of circuits comprising back-gate graphene field-effect transistors (GFETs) and compared in detail their performance and implementation complexity. We have also proposed a reliable readout method based on the machine learning for extracting the mean value and the fluctuation of chemical doping levels in GFETs. The proposed graphene-based harmonic sensor may potentially benefit a wide range of sensing applications, including, but not limited to, power-efficient, real-time monitoring of chemical/gas exposures and biological agents, as well as emerging wearable and implantable devices.

Clinical genitourinary cancer, Oct 24, 2016

Abiraterone and enzalutamide are 2 novel androgen receptor (AR)-targeting therapies that improve ... more Abiraterone and enzalutamide are 2 novel androgen receptor (AR)-targeting therapies that improve survival in patients with metastatic castration-resistant prostate cancer. The factors that predict abiraterone and enzalutamide response are lacking. The objective of the present study was to determine whether the outcomes from primary androgen deprivation therapy (ADT) could predict the outcomes with subsequent novel AR-targeting therapies. We identified 80 consecutive patients with metastatic castration-resistant prostate cancer treated with abiraterone or enzalutamide. Cox regression models were used to analyze the relationships between the primary ADT response and the primary outcome of progression-free survival (PFS) after initiating novel hormonal therapy. The secondary outcomes included prostate-specific antigen decline and overall survival. The survival probabilities were plotted using the Kaplan-Meier method, and the differences assessed with the log-rank test. The time to cast...

The Journal of Urology, 2015

Abiraterone and enzalutamide are two novel androgen-receptor (AR)-targeting therapies that improv... more Abiraterone and enzalutamide are two novel androgen-receptor (AR)-targeting therapies that improve survival in men with metastatic castration-resistant prostate cancer (mCRPC). Factors that predict abiraterone and enzalutamide response are lacking. The objective of this study was to determine if prostate-specific antigen (PSA) outcomes on primary androgen deprivation therapy (ADT) could predict outcomes on subsequent novel ARtargeting therapies. METHODS: A multicenter retrospective review was performed to identify mCRPC patients who had received abiraterone or enzalutamide. Eligible patients must have received novel AR-targeting therapy for at least 8 weeks and must have been evaluable for response by PSA criteria. The clinical outcome measures evaluated included prostatespecific antigen (PSA) decline, biochemical progression-free survival (bPFS), and overall survival (OS) after initiating novel hormone therapy. Cox regression models were used to analyze the effects of primary therapy response and other clinicopathologic factors on novel hormone therapy outcomes. Survival probabilities were plotted using the Kaplan-Meier method and differences assessed with the log-rank test. RESULTS: The population consisted of 80 males who received abiraterone (N¼51) or enzalutamide (N¼29). The median age at diagnosis was 64.6 years, and the median age at start of novel ADT was 73.2 years. A subset of patients also received docetaxel treatment prior to start of novel ADT (N¼27). The median bPFS on primary ADT was 1.9 years (range 0.1-15.9 years) with a median PSA decline of 99%. bPFS on primary ADT showed a significant univariate effect on bPFS and OS after initiating novel ADT (p¼0.032 and p¼0.028, respectively). Patients who progressed on primary ADT prior to 1 year had a median bPFS on novel AR-targeting therapy of 3.4 months, compared to a median bPFS of 7.6 months and 8.1 months for patients whose time to PSA progression on primary ADT was 1 and < 5 years (p¼0.008), and 5 years (p¼0.026), respectively. CONCLUSIONS: In patients with mCRPC treated with novel ADT, time to PSA progression on primary ADT had a significant effect on time to progression on novel ADT in the univariate analysis. Patients who progressed on primary ADT within the first year of treatment had shorter bPFS on subsequent AR-targeting therapy. These potential predictive factors could help guide clinical decisions when treating mCRPC patients.

Lecture Notes in Computer Science, 2014

This paper outlines a strategy and suite of tools for creating more accessible and personalizable... more This paper outlines a strategy and suite of tools for creating more accessible and personalizable web content by supporting the creation of accessibility metadata. The tools showcased below allow content creators to easily generate metadata at the point of creation, reducing the cost and complexity of producing and delivering content that can be tailored to a user's needs and preferences. This work follows the AccessForAll approach, which focuses on meeting individual user's needs by matching those needs to appropriate content [1]. This level of personalization depends upon both the availability of infrastructure that can deliver alternative and adapted versions, and on the availability of content with accessibility metadata that can be used in the matchmaking process.

Water Distribution Systems Analysis 2010, 2011

Abstract Measured field data are required to calibrate a hydraulic model. Field data is typically... more Abstract Measured field data are required to calibrate a hydraulic model. Field data is typically collected through a hydrant testing program???the process of opening a hydrant and measuring the flow from it, while recording residual pressures at other hydrants in the area ...

International Journal of Radiation Oncology*Biology*Physics, 2008

To evaluate the outcomes in pediatric low-grade gliomas managed in a multidisciplinary setting. W... more To evaluate the outcomes in pediatric low-grade gliomas managed in a multidisciplinary setting. We conducted a single-institution retrospective study of 181 children with Grade I-II gliomas. Log-rank and stepwise Cox proportional hazards models were used to analyze freedom from progression (FFP) and overall survival (OS). Median follow-up was 6.4 years. Thirty-four (19%) of patients had neurofibromatosis Type 1 (NF1) and because of their favorable prognosis were evaluated separately. In the 147 (81%) of patients without NF1, actuarial 7-year FFP and OS were 67 ± 4% (standard error) and 94 ± 2%, respectively. In this population, tumor location in the optic pathway/hypothalamus was associated with worse FFP (39% vs. 76%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.0003), but there was no difference in OS. Age ≤5 years was associated with worse FFP (52% vs. 75%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.02) but improved OS (97% vs. 92%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.05). In those with tissue diagnosis, gross total resection (GTR) was associated with improved 7-year FFP (81% vs. 56%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.02) and OS (100% vs. 90%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.03). In a multivariate model, only location in the optic pathway/hypothalamus predicted worse FFP (p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.01). Fifty patients received radiation therapy (RT). For those with less than GTR, adjuvant RT improved FFP (89% vs. 49%, p &amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;lt; 0.003) but not OS. There was no difference in OS between patient groups given RT as adjuvant vs. salvage therapy. In NF1 patients, 94% of tumors were located in the optic pathway/hypothalamus. With a conservative treatment strategy in this population, actuarial 7-year FFP and OS were 73 ± 9% and 100%, respectively. Low-grade gliomas in children ≤5 years old with tumors in the optic pathway/hypothalamus are more likely to progress, but this does not confer worse OS because of the success of salvage therapy. When GTR is not achieved, adjuvant RT improves FFP but not OS. Routine adjuvant RT can be avoided and instead reserved as salvage.

An effective supply chain is critical to the success of the products and services sold by compani... more An effective supply chain is critical to the success of the products and services sold by companies. Companies must have an explicit understanding of what the supply chain strategy is in order to evaluate it. While most organizations have well-documented ...

Journal of Experimental …, 2008

Escherichia coli, a gram negative enteric bacterium, is constantly exposed to adverse environment... more Escherichia coli, a gram negative enteric bacterium, is constantly exposed to adverse environments, such as UV radiation, temperature or osmotic shock, oxidative stress and nutrient deprivation, forcing it to adapt in order to survive. Fortunately for E. coli, they have ...